SMTL ID : 4pd1.1

Structure of gephyrin E domain with Glycine-beta receptor peptide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.98 Å

Oligo State

hetero-2-2-mer

Ligands

16 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 5 residues within 4Å: Chain A: Q.401, Y.402, V.403, E.404, H.406 Ligand excluded by PLIP GOL.2: 6 residues within 4Å: Chain A: V.22, L.23, T.25, A.39, K.156, N.179 Ligand excluded by PLIP GOL.3: 8 residues within 4Å: Chain A: K.180, V.183, S.246, R.247, A.248, D.249, K.302 Ligands: ACT.9 Ligand excluded by PLIP GOL.4: 4 residues within 4Å: Chain A: T.25, E.26, I.27, E.177 Ligand excluded by PLIP GOL.5: 6 residues within 4Å: Chain A: Q.40, D.41, V.42, Y.43, K.45, V.173 Ligand excluded by PLIP GOL.6: 11 residues within 4Å: Chain A: V.37, G.157, T.158, H.159, G.331, I.332, L.333, D.334 Chain C: L.383, M.386, R.387 Ligand excluded by PLIP GOL.7: 13 residues within 4Å: Chain A: G.161, P.162 Chain C: E.219, H.220, V.315, N.319, R.358, S.388, A.389, N.390, I.416, G.417 Ligands: GOL.17 Ligand excluded by PLIP GOL.8: 12 residues within 4Å: Chain A: T.212, T.216, V.315, N.319, R.358, S.388, A.389 Chain C: G.161, P.162, S.163, E.164 Ligands: GOL.16 Ligand excluded by PLIP GOL.10: 5 residues within 4Å: Chain C: Q.401, Y.402, V.403, E.404, H.406 Ligand excluded by PLIP GOL.11: 6 residues within 4Å: Chain C: V.22, L.23, T.25, A.39, K.156, N.179 Ligand excluded by PLIP GOL.12: 8 residues within 4Å: Chain C: K.180, V.183, S.246, R.247, A.248, D.249, K.302 Ligands: ACT.18 Ligand excluded by PLIP GOL.13: 4 residues within 4Å: Chain C: T.25, E.26, I.27, E.177 Ligand excluded by PLIP GOL.14: 6 residues within 4Å: Chain C: Q.40, D.41, V.42, Y.43, K.45, V.173 Ligand excluded by PLIP GOL.15: 11 residues within 4Å: Chain A: L.383, M.386, R.387 Chain C: V.37, G.157, T.158, H.159, G.331, I.332, L.333, D.334 Ligand excluded by PLIP GOL.16: 13 residues within 4Å: Chain A: E.219, H.220, V.315, N.319, R.358, S.388, A.389, N.390, I.416, G.417 Chain C: G.161, P.162 Ligands: GOL.8 Ligand excluded by PLIP GOL.17: 12 residues within 4Å: Chain A: G.161, P.162, S.163, E.164 Chain C: T.212, T.216, V.315, N.319, R.358, S.388, A.389 Ligands: GOL.7 Ligand excluded by PLIP

2 x ACT: ACETATE ION(Non-functional Binders)

ACT.9: 6 residues within 4Å: Chain A: E.26, R.36, K.180, F.181, P.223 Ligands: GOL.3 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:K.180, A:F.181 ACT.18: 6 residues within 4Å: Chain C: E.26, R.36, K.180, F.181, P.223 Ligands: GOL.12 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:K.180, C:F.181

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Maric, H.M. et al., Modulation of gephyrin-glycine receptor affinity by multivalency. Acs Chem.Biol. (2014)

Release Date

2014-08-27

Peptides

Gephyrin: AC
Glycine receptor subunit beta: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

B
C

D
C

Gephyrin

Glycine receptor subunit beta

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